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Protein

DNA-(apurinic or apyrimidinic site) lyase 2

Gene

APN2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

DNA repair enzyme that cleaves apurinic/apyrimidinic (AP) sites and removes 3'-blocking groups present at single strand breaks of damaged DNA.

Catalytic activityi

The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.PROSITE-ProRule annotation

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Probably binds two magnesium or manganese ions per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi59 – 591Magnesium 1By similarity
Active sitei181 – 1811By similarity
Active sitei222 – 2221Proton donor/acceptorBy similarity
Metal bindingi222 – 2221Magnesium 2By similarity
Metal bindingi224 – 2241Magnesium 2By similarity
Sitei224 – 2241Transition state stabilizerBy similarity
Sitei328 – 3281Important for catalytic activityBy similarity
Metal bindingi353 – 3531Magnesium 1By similarity
Sitei354 – 3541Interaction with DNA substrateBy similarity

GO - Molecular functioni

  1. DNA-(apurinic or apyrimidinic site) lyase activity Source: SGD
  2. DNA binding Source: InterPro
  3. double-stranded DNA 3'-5' exodeoxyribonuclease activity Source: SGD
  4. phosphoric diester hydrolase activity Source: SGD
  5. zinc ion binding Source: InterPro

GO - Biological processi

  1. base-excision repair Source: SGD
  2. nucleic acid phosphodiester bond hydrolysis Source: GOC
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-28922-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-(apurinic or apyrimidinic site) lyase 2 (EC:4.2.99.18)
Alternative name(s):
AP endonuclease 2
Apurinic-apyrimidinic endonuclease 2
Gene namesi
Name:APN2
Synonyms:ETH1
Ordered Locus Names:YBL019W
ORF Names:YBL0443
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome II

Organism-specific databases

CYGDiYBL019w.
EuPathDBiFungiDB:YBL019W.
SGDiS000000115. APN2.

Subcellular locationi

GO - Cellular componenti

  1. nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 520520DNA-(apurinic or apyrimidinic site) lyase 2PRO_0000200020Add
BLAST

Proteomic databases

MaxQBiP38207.
PaxDbiP38207.
PRIDEiP38207.

Expressioni

Gene expression databases

GenevestigatoriP38207.

Interactioni

Protein-protein interaction databases

BioGridi32679. 39 interactions.
DIPiDIP-3930N.
IntActiP38207. 2 interactions.
MINTiMINT-515848.
STRINGi4932.YBL019W.

Structurei

3D structure databases

ProteinModelPortaliP38207.
SMRiP38207. Positions 17-365.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the DNA repair enzymes AP/ExoA family.Curated

Phylogenomic databases

eggNOGiCOG0708.
GeneTreeiENSGT00530000063540.
HOGENOMiHOG000246560.
InParanoidiP38207.
KOiK10772.
OMAiMYTVWNT.
OrthoDBiEOG7TTQJT.

Family and domain databases

Gene3Di3.60.10.10. 2 hits.
InterProiIPR004808. AP_endonuc_1.
IPR020848. AP_endonuclease_F1_CS.
IPR005135. Endo/exonuclease/phosphatase.
IPR010666. Znf_GRF.
[Graphical view]
PANTHERiPTHR22748. PTHR22748. 1 hit.
PfamiPF03372. Exo_endo_phos. 1 hit.
PF06839. zf-GRF. 1 hit.
[Graphical view]
SUPFAMiSSF56219. SSF56219. 2 hits.
PROSITEiPS00728. AP_NUCLEASE_F1_3. 1 hit.
PS51435. AP_NUCLEASE_F1_4. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P38207-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSSENTLLD GKSENTIRFL TFNVNGIRTF FHYQPFSQMN QSLRSVFDFF
60 70 80 90 100
RADIITFQEL KTEKLSISKW GRVDGFYSFI SIPQTRKGYS GVGCWIRIPE
110 120 130 140 150
KNHPLYHALQ VVKAEEGITG YLTIKNGKHS AISYRNDVNQ GIGGYDSLDP
160 170 180 190 200
DLDEKSALEL DSEGRCVMVE LACGIVIISV YCPANSNSSE EGEMFRLRFL
210 220 230 240 250
KVLLRRVRNL DKIGKKIVLM GDVNVCRDLI DSADTLEQFS IPITDPMGGT
260 270 280 290 300
KLEAQYRDKA IQFIINPDTP HRRIFNQILA DSLLPDASKR GILIDTTRLI
310 320 330 340 350
QTRNRLKMYT VWNMLKNLRP SNYGSRIDFI LVSLKLERCI KAADILPDIL
360 370 380 390 400
GSDHCPVYSD LDILDDRIEP GTTQVPIPKF EARYKYNLRN HNVLEMFAKK
410 420 430 440 450
DTNKESNKQK YCVSKVMNTK KNSNIKNKSL DSFFQKVNGE KDDRIKESSE
460 470 480 490 500
IPQQAKKRIS TPKLNFKDVF GKPPLCRHGE ESMLKTSKTS ANPGRKFWIC
510 520
KRSRGDSNNT ESSCGFFQWV
Length:520
Mass (Da):59,445
Last modified:October 1, 1994 - v1
Checksum:iE3947C4D904C53FB
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti15 – 151N → D in AAT93202 (PubMed:17322287).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z35780 Genomic DNA. Translation: CAA84838.1.
AY693183 Genomic DNA. Translation: AAT93202.1.
BK006936 Genomic DNA. Translation: DAA07101.1.
PIRiS45753.
RefSeqiNP_009534.1. NM_001178259.1.

Genome annotation databases

EnsemblFungiiYBL019W; YBL019W; YBL019W.
GeneIDi852262.
KEGGisce:YBL019W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z35780 Genomic DNA. Translation: CAA84838.1.
AY693183 Genomic DNA. Translation: AAT93202.1.
BK006936 Genomic DNA. Translation: DAA07101.1.
PIRiS45753.
RefSeqiNP_009534.1. NM_001178259.1.

3D structure databases

ProteinModelPortaliP38207.
SMRiP38207. Positions 17-365.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32679. 39 interactions.
DIPiDIP-3930N.
IntActiP38207. 2 interactions.
MINTiMINT-515848.
STRINGi4932.YBL019W.

Proteomic databases

MaxQBiP38207.
PaxDbiP38207.
PRIDEiP38207.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYBL019W; YBL019W; YBL019W.
GeneIDi852262.
KEGGisce:YBL019W.

Organism-specific databases

CYGDiYBL019w.
EuPathDBiFungiDB:YBL019W.
SGDiS000000115. APN2.

Phylogenomic databases

eggNOGiCOG0708.
GeneTreeiENSGT00530000063540.
HOGENOMiHOG000246560.
InParanoidiP38207.
KOiK10772.
OMAiMYTVWNT.
OrthoDBiEOG7TTQJT.

Enzyme and pathway databases

BioCyciYEAST:G3O-28922-MONOMER.

Miscellaneous databases

NextBioi970856.
PROiP38207.

Gene expression databases

GenevestigatoriP38207.

Family and domain databases

Gene3Di3.60.10.10. 2 hits.
InterProiIPR004808. AP_endonuc_1.
IPR020848. AP_endonuclease_F1_CS.
IPR005135. Endo/exonuclease/phosphatase.
IPR010666. Znf_GRF.
[Graphical view]
PANTHERiPTHR22748. PTHR22748. 1 hit.
PfamiPF03372. Exo_endo_phos. 1 hit.
PF06839. zf-GRF. 1 hit.
[Graphical view]
SUPFAMiSSF56219. SSF56219. 2 hits.
PROSITEiPS00728. AP_NUCLEASE_F1_3. 1 hit.
PS51435. AP_NUCLEASE_F1_4. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete DNA sequence of yeast chromosome II."
    Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C.
    , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
    EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. "Identification of APN2, the Saccharomyces cerevisiae homolog of the major human AP endonuclease HAP1, and its role in the repair of abasic sites."
    Johnson R.E., Torres-Ramos C.A., Izumi T., Mitra S., Prakash S., Prakash L.
    Genes Dev. 12:3137-3143(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION.
  5. Cited for: CHARACTERIZATION.
  6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiAPN2_YEAST
AccessioniPrimary (citable) accession number: P38207
Secondary accession number(s): D6VPY1, E9P926
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: October 1, 1994
Last modified: April 29, 2015
This is version 115 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 414 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome II
    Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.